Sequence
atgc intronic sequence ATGC exonic sequenceATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtatactgtcttgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G13430.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 8
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtatactgtct------tgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtctt---actcctgatctta--tatcttctgcag------------------------------------------------------------------
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ATGGAAGAGCGAATGACACTGTGCAACATGGTTATTGAAGCTGGTGGCAAGAATGGTGTTGTGCCTGCCGATCAAACTACATTTAACTATCTTGAGgtactttaatggcctttaaaatgcttggtaataaaatgagcgatatttttatgcaaataaaacaacccaacatccttaagcttcgaataagaagaaatatttacaagaacaaatttctaacttttacataatgataattatgactccatatcggtcatcctggtaactgcag
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G370852_T01 (Zea mays), 5'ss of exon 8
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtatactgtcttgtt---ttcttgtaa------------atcatatgtttcttcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag---------------------------------------------------------------------
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ATGGAAGAACGTATGACACTATGCAACATGGTTGTTGAAGCTGGTGGAAAGAACGGTGTCGTGCCTGCTGATGAAACTACATTTAAATACCTTGAGgtacaaaactagtccccttaaatgctcataacaaagttgggccaatatgcttttctttcataa-cattccaataa-gtttgagatagagagtgctcagaacaatttgcagaagtgagcttctaccatttagtttgtaggatagttctgacatcaatattgttgtgctggtatactgcag
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA17G37540.1 (Glycine max), 5'ss of exon 9
-ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtata-ctgtcttgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtcttactc--ctgatcttatatct----tctgcag
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GATGGAAGAACGGATGACATTGTGCAACATGGTTGTTGAAGCTGGTGGAAAGAATGGTGTTGTTCCTGCTGACAGCACTACATTTAAATATCTTGAggtttgtgcaactgagtagatgcactgaaattggtatcttgcctctaaagttat-atgttctcat-tggctttctcaatggattttttaagagaagattgta-
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA14G40570.1 (Glycine max), 5'ss of exon 9
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtata-ctgtcttgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag------
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ATGGAAGAACGGATGACATTGTGCAACATGGTTGTTGAAGCTGGTGGAAAGAATGGTGTTGTTCCTGCTGACAGCACTACATTTAAATATCTTGAGgtttgtgcaactgagtagatgcactgaaattgatattttgcctctaaagttat-atgttgtcat-tggtaaagatttcataatatcttgattgtatcctaga
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G34160.1 (Glycine max), 5'ss of exon 10
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgca--------tgtatactgtc--ttgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag
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ATGGAAGAAAGGATGACACTGTGCAACATGGTTATAGAAGCTGGAGGGAAAAACGGTATTGTTGCTGCTGATAGAACCACATACAAATACCTTGAGgttgttgaagttgaacagcgccctttatgtttttctcatttcactgtttctctcttcatgtatgtgcttgcatatatac-atgcaagatgctgaattttca----
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 5'ss of exon 9
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtata---ctgtcttgttttcttgtaaatc-atatgtttct--tcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag------------------------------------
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ATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAGgtcggaataaatcagtttctctttctctaatatttgtgtgctattgataaacgaaaaaaaaaaaggaacaaaatttgttcttt-ttgtgcttatcatgcaactattttgtttggcttaagtcagtttctttgcacag
upper sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv05s0049g01980.t01 (Vitis vinifera), 5'ss of exon 9
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtatac--------tgtcttgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag----------------------
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ATGGAAGAAAGAATGACATTATGCAACATGGTTATTGAAGCTGGGGGAAAGAATGGTGTTGTCCCTGCTGATAGTACTACACATAAGTACCTTGAGgttagaagaaatcattcatctctctctctctctcatgcttgctattgccaaaagggtgattttttttctctttatgcttattgtgcaactctttcttctggctaagtcattgtttctttgcacagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|124704935|gb|EH796337.1|EH796337EST: GAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAG AATAGGACATCTGTACCATTTGAGCCA
genomic: GAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtatac ... tcttctgcagAATAGGACATCTGTACCATTTGAGCCA
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAGgcatgtatactgtcttgttttcttgtaaatcatatgtttcttcaaggatcattatattgatgtatgtcttactcctgatcttatatcttctgcag
- - - - - - - - - - - - - - - - - - - - - - - AAAGAA